Evaluation of the size effect of hydrophobic ring substitution on 9-O position of berberine on DNA binding.

The interaction of deoxyribonucleic acid (DNA) with medicinally significant small molecules has long piqued the interest of researchers because its applications are directly related to the discovery of new classes of drugs. Keeping this in mind, here we report berberine derivatives and their interaction with calf thymus DNA (CT-DNA). In this report we discussed on the structural perspectives and thermodynamic characteristics of the interaction of four 9-O-substituted berberines (BRDR1 to BRDR4) with CT-DNA. The binding affinity of BRDR-DNA complexes increased with increasing the cycloalkane ring size of the substitution except BRDR2. The binding constant value obtained from UV-Visible spectral analysis was 1.12 × 106 for BRDR1, 0.37 × 106 for BRDR2, 1.72 × 106 for BRDR3 and 3.20 × 106 for BRDR4. Ferrocyanide quenching experiments revealed unequivocally that the analogues except BRDR2 had a partly intercalative binding to DNA. From the ITC experiment it was found that the bindings of BRDR1, BRDR3 and BRDR4 to DNA was favoured by negative enthalpy and positive entropy while BRDR2 was driven by positive enthalpy and positive entropy. In all cases the hydrophobic interaction plays a crucial role. Thus, the complete multispectroscopic and thermodynamic binding studies may be useful for new drug design and development.Communicated by Ramaswamy H. Sarma.

Evaluation of calf thymus DNA binding of newly synthesize five 9 O Imidazolyl alkyl berberine derivative: A comparative multi-spectroscopic and calorimetric study.

DNA binding with small molecule plays an important role in the designing of various anticancer drugs with greater efficacy. The five 9-O-imidazolyl alkyl berberine derivatives (BI) of different chain length has been synthesized and fully characterized. The binding study of calf thymus DNA with these newly synthesized berberine derivative was performed using various biophysical techniques. The binding affinity of BI to calf thymus DNA increased with increasing the chain length. The binding constant value obtained from UV-Vis spectral analysis was 1.84x105for BI1, 2.01x105for BI2, 1.51 × 106 for BI3, 3.66 × 106 for BI4, 6.68 × 106. Partial intercalative binding with strong stabilization of the DNA helix was revealed from circular dichroism spectral study and viscosity measurement. From the ITC experiment it was revealed that the bindings of BI1, BI2, BI3, BI4 and BI5 to calf thymus DNA were favoured by a large positive favourable entropy and negative enthalpy change and the highest spontaneity found for BI5. With the increase in chain length the binding was driven by a stronger entropy term with a higher binding constant indicates involvement of hydrophobic force for all these interaction. High binding affinities of calf thymus DNA with berberine-imidazole derivatives might be helpful for new drug design.

Berberine derivatives as heteroatom induced hydrophobic sensor: An analytical approach for the selective and sensitive fluorometric detection and discrimination of serum albumins.

The detection and discrimination of serum albumins (SAs) has been transforming as a research work of keen interest to the scientists in recent times. This is in the root of foundation of more and more fluorescent probes to selectively identify and distinguish the SAs in the modern era of research. Fluorescence based sensors are preferably on high demand because of high sensitivity of fluorescence spectroscopy. Herein we have synthesized berberine derivatives with substitutions at two different positions (9 and 13) with the purpose of an analytical study to detect and differentiate the SAs. It was found that only the 9-O substituted derivatives showed a dramatic enhancement in their inherently weak fluorescence intensity after the addition of serum albumins (BSA and HSA) indicating the occurrence of heteroatom induced hydrophobic binding interaction. Lower value of detection limit, 6.8 nM and 6.1 nM for BSA and 17.8 nM and 16.3 nM for HSA respectively for the two compounds N1 and N2 and extended range of linearity for both the probes justify the fruitfulness of the research work. Moreover, the two effective 9-O substituted probes response differently in presence of the two SAs by the nature, intensity of the fluorescence spectra and position of wavelength maxima which enable us in deciphering the two essential proteins. All the results reveal how the presence of a heteroatom influences the hydrophobic sensing of the SAs and divulge the utility of the synthesized berberine derivatives in detection and distinction of two SAs successfully in the coming years.